SMTL ID : 7lcf.1 (2 other biounits)

Dihydrodipicolinate synthase (DHDPS) from C.jejuni, with pyruvate bound in the active site and L-lysine bound at the allosteric site in C121 space group

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.69 Å

Oligo State

homo-tetramer

Ligands

4 x LYS: LYSINE(Non-covalent)

LYS.1: 10 residues within 4Å: Chain A: S.63, A.64, L.66, H.68, H.71, E.100, Y.122 Chain D: N.96, E.100 Ligands: LYS.4 9 PLIP interactions: 3 interactions with chain D, 3 interactions with chain A, 3 Ligand-Ligand interactions Hydrogen bonds: D:N.96, D:N.96, D:E.100, A:H.71, A:Y.122, K.1, K.4 Water bridges: A:S.63 Salt bridges: K.1 LYS.2: 11 residues within 4Å: Chain B: S.63, A.64, L.66, H.68, H.71, S.95, E.100, Y.122 Chain C: N.96, E.100 Ligands: LYS.3 9 PLIP interactions: 3 interactions with chain C, 2 interactions with chain B, 4 Ligand-Ligand interactions Hydrogen bonds: C:N.96, C:N.96, C:E.100, B:S.63, B:H.71, K.2, K.3, K.3 Salt bridges: K.2 LYS.3: 9 residues within 4Å: Chain B: N.96, E.100 Chain C: S.63, A.64, L.66, H.68, H.71, Y.122 Ligands: LYS.2 7 PLIP interactions: 2 interactions with chain B, 3 Ligand-Ligand interactions, 2 interactions with chain C Hydrogen bonds: B:N.96, B:E.100, K.2, K.2, C:H.71, C:Y.122 Salt bridges: K.3 LYS.4: 8 residues within 4Å: Chain A: N.96, E.100 Chain D: S.63, A.64, L.66, H.71, Y.122 Ligands: LYS.1 6 PLIP interactions: 2 interactions with chain A, 2 interactions with chain D, 2 Ligand-Ligand interactions Hydrogen bonds: A:N.96, A:E.100, D:S.63, D:H.71 Water bridges: K.4 Salt bridges: K.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Saran, S. et al., B-factors: L- lysine and R, R- bisLysine allosterically inhibit Cj. DHDPS Enzyme by decreasing its protein dynamics. To Be Published

Release Date

2022-01-12

Peptides

4-hydroxy-tetrahydrodipicolinate synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
F

D
G

4-hydroxy-tetrahydrodipicolinate synthase

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